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BioHPC
astrocyte_example_wordcount
Commits
7f6620e2
Commit
7f6620e2
authored
Jun 14, 2021
by
Devin OKelly
Browse files
Update .gitlab-ci.yml file
parent
9af5bb5a
Changes
1
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.gitlab-ci.yml
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7f6620e2
...
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@@ -5,6 +5,7 @@ stages:
-
cache_docker
-
test_singularity
-
cache_singularity
-
test_gitlab
variables
:
GIT_STRATEGY
:
clone
...
...
@@ -116,7 +117,7 @@ cache_docker_image:
-
xargs -a containers.txt -I % docker push "$CI_REGISTRY/$CI_PROJECT_ROOT_NAMESPACE/$CI_PROJECT_NAME/%"
needs
:
-
docker_astrocyte_test
singularity_astrocyte_test
:
stage
:
test_singularity
script
:
...
...
@@ -126,6 +127,33 @@ singularity_astrocyte_test:
-
astrocyte_cli run "$CI_PROJECT_DIR" --option=q
-
test -s "$CI_PROJECT_DIR/workflow/output/mobydick.txt.uppercase.tolines.wordcount"
docker_gitlab_test
:
stage
:
test_gitlab
variables
:
config_path
:
"
workflow/configs/"
config_filename
:
"
biohpc_docker_gitlab.config"
script
:
-
sed -i "s|nextflow_config\x3A \x27biohpc.config\x27|nextflow_config\x3A \x27${config_filename}\x27|" astrocyte_pkg.yml
-
astrocyte_cli run "$CI_PROJECT_DIR" --option=q
-
test -s "$CI_PROJECT_DIR/workflow/output/mobydick.txt.uppercase.tolines.wordcount"
tags
:
-
cluster_node
singularity_gitlab_test
:
stage
:
test_gitlab
variables
:
config_path
:
"
workflow/configs/"
config_filename
:
"
biohpc_singularity_gitlab.config"
script
:
-
sed -i "s|nextflow_config\x3A \x27biohpc.config\x27|nextflow_config\x3A \x27${config_filename}\x27|" astrocyte_pkg.yml
-
astrocyte_cli run "$CI_PROJECT_DIR" --option=q
-
test -s "$CI_PROJECT_DIR/workflow/output/mobydick.txt.uppercase.tolines.wordcount"
tags
:
-
cluster_node
cache_singularity_image
:
stage
:
cache_singularity
script
:
...
...
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